gatk3的最后一个经典版本3.8

Guillermo del Angel d7308646e9 Fix bugs so that we can pass in 2 simultaneous samples in metadata (no co-cleaning yet but at least we don't need to run pipeline twice) to produce 2 bams. Pasted temp mutect so it's also run at the end of the run		2012-10-15 13:49:08 -04:00
licensing	Revert unintentional license change	2012-08-09 17:10:47 -04:00
protected/java	Increasing the precision of MathUtils.approximateLog10SumLog10 from 1E-3 to 1E-4. Genotyper integration tests change as a result. Expanding the unit tests of MathUtils.log10sumLog10.	2012-10-15 13:24:32 -04:00
public	upgraded mutation caller with VCF output	2012-10-15 13:49:08 -04:00
settings	Updating cofoja to the latest version	2012-08-09 16:36:18 -04:00
.gitignore	a few more useful git ignores	2012-09-01 11:08:36 -04:00
build.xml	Proper error handling in NanoScheduler	2012-09-19 17:03:13 -04:00
ivy.xml	Updating cofoja to the latest version	2012-08-09 16:36:18 -04:00